scholarly article | Q13442814 |
P50 | author | Robert A Edwards | Q56810780 |
Ramy K. Aziz | Q30505462 | ||
P2093 | author name string | Sajia Akhter | |
P2860 | cites work | A Mathematical Theory of Communication | Q724029 |
Prophinder: a computational tool for prophage prediction in prokaryotic genomes. | Q51895172 | ||
Intrastrand parity rules of DNA base composition and usage biases of synonymous codons. | Q52209838 | ||
Skewed oligomers and origins of replication. | Q52232869 | ||
Properties of a general model of DNA evolution under no-strand-bias conditions. | Q52878851 | ||
Bacteriophage Mu genome sequence: analysis and comparison with Mu-like prophages in Haemophilus, Neisseria and Deinococcus. | Q54548221 | ||
Prophage lambda at unusual chromosomal locations. I. Location of the secondary attachment sites and the properties of the lysogens | Q69164900 | ||
Use of an ordered cosmid library to deduce the genomic organization of Mycobacterium leprae | Q70592227 | ||
Insights on Evolution of Virulence and Resistance from the Complete Genome Analysis of an Early Methicillin-Resistant Staphylococcus aureus Strain and a Biofilm-Producing Methicillin-Resistant Staphylococcus epidermidis Strain | Q22065445 | ||
The genome sequence of Xanthomonas oryzae pathovar oryzae KACC10331, the bacterial blight pathogen of rice | Q22065983 | ||
Whole genome comparisons of serotype 4b and 1/2a strains of the food-borne pathogen Listeria monocytogenes reveal new insights into the core genome components of this species | Q22065989 | ||
The complete genome sequence of Mycobacterium bovis | Q22066275 | ||
Complete genome sequence of an M1 strain of Streptococcus pyogenes | Q22066334 | ||
Complete genomes of two clinical Staphylococcus aureus strains: evidence for the rapid evolution of virulence and drug resistance | Q22066348 | ||
The complete genome sequence of Mycobacterium avium subspecies paratuberculosis | Q22066352 | ||
Genome sequence of enterohaemorrhagic Escherichia coli O157:H7 | Q22122385 | ||
Identifying Important Risk Factors for Survival in Kidney Graft Failure Patients Using Random Survival Forests | Q22673963 | ||
Analyzing genomes with cumulative skew diagrams | Q24498116 | ||
Comparative genomics of Salmonella enterica serovar Typhi strains Ty2 and CT18 | Q24554266 | ||
Comparative genomic analysis of 60 Mycobacteriophage genomes: genome clustering, gene acquisition, and gene size | Q24634617 | ||
Prophage genomics | Q24673108 | ||
Phage_Finder: automated identification and classification of prophage regions in complete bacterial genome sequences | Q24674211 | ||
Genome plasticity of BCG and impact on vaccine efficacy | Q24674276 | ||
Basic local alignment search tool | Q25938991 | ||
The complete genome sequence of Escherichia coli K-12 | Q27860542 | ||
A bacterial genome in flux: the twelve linear and nine circular extrachromosomal DNAs in an infectious isolate of the Lyme disease spirochete Borrelia burgdorferi | Q28144621 | ||
Genome sequence of Staphylococcus aureus strain Newman and comparative analysis of staphylococcal genomes: polymorphism and evolution of two major pathogenicity islands | Q28493270 | ||
Asymmetric substitution patterns in the two DNA strands of bacteria | Q29618276 | ||
Mosaic prophages with horizontally acquired genes account for the emergence and diversification of the globally disseminated M1T1 clone of Streptococcus pyogenes. | Q33214624 | ||
Contribution of exogenous genetic elements to the group A Streptococcus metagenome | Q33295386 | ||
Identification of prophages in bacterial genomes by dinucleotide relative abundance difference | Q33306681 | ||
Genome landscapes and bacteriophage codon usage | Q33332469 | ||
Mobile genetic elements in the genome of the beneficial rhizobacterium Pseudomonas fluorescens Pf-5. | Q33399917 | ||
Accessing the SEED genome databases via Web services API: tools for programmers | Q33603751 | ||
Preferential orientation of natural lambdoid prophages and bacterial chromosome organization | Q34776786 | ||
The pangenome structure of Escherichia coli: comparative genomic analysis of E. coli commensal and pathogenic isolates | Q34803749 | ||
ACLAME: a CLAssification of Mobile genetic Elements | Q34932251 | ||
Prophages and bacterial genomics: what have we learned so far? | Q35187156 | ||
Lambdoid phages as elements of bacterial genomes (integrase/phage21/Escherichia coli K-12/icd gene) | Q35611758 | ||
Characterization of the ELPhiS prophage from Salmonella enterica serovar Enteritidis strain LK5. | Q35817097 | ||
Genomic and genetic analyses of diversity and plant interactions of Pseudomonas fluorescens | Q37282936 | ||
Viral adaptation to host: a proteome-based analysis of codon usage and amino acid preferences | Q37425283 | ||
Whole-genome sequence of Listeria welshimeri reveals common steps in genome reduction with Listeria innocua as compared to Listeria monocytogenes | Q39111241 | ||
Computational identification of operons in microbial genomes | Q39860961 | ||
The genome sequence of avian pathogenic Escherichia coli strain O1:K1:H7 shares strong similarities with human extraintestinal pathogenic E. coli genomes | Q40243266 | ||
Structural analysis of the actinophae ФC31 attachment site | Q40507422 | ||
Viral integration and excision: structure of the lambda att sites | Q40804250 | ||
Comparative DNA analysis across diverse genomes. | Q45934068 | ||
Post-proteomic identification of a novel phage-encoded streptodornase, Sda1, in invasive M1T1 Streptococcus pyogenes | Q48170337 | ||
P275 | copyright license | Creative Commons Attribution-NonCommercial 3.0 Unported | Q18810331 |
P6216 | copyright status | copyrighted | Q50423863 |
P433 | issue | 16 | |
P407 | language of work or name | English | Q1860 |
P304 | page(s) | e126 | |
P577 | publication date | 2012-05-14 | |
P1433 | published in | Nucleic Acids Research | Q135122 |
P1476 | title | PhiSpy: a novel algorithm for finding prophages in bacterial genomes that combines similarity- and composition-based strategies | |
P478 | volume | 40 |
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